Variant report

Variant	rs58046208
Chromosome Location	chr2:145083790-145083791
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:145081859..145086647-chr2:145087025..145090343,4	MCF-7	breast:
2	chr2:145080448..145086688-chr2:145086871..145092825,10	K562	blood:

Variant related genes	Relation type
ENSG00000121964	Chromatin interaction

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs12328646	1.00[EUR][1000 genomes]
rs16823453	1.00[EUR][1000 genomes]
rs16823456	1.00[EUR][1000 genomes]
rs16823477	1.00[EUR][1000 genomes]
rs16823483	1.00[EUR][1000 genomes]
rs16823486	1.00[EUR][1000 genomes]
rs16823490	1.00[EUR][1000 genomes]
rs16823495	1.00[EUR][1000 genomes]
rs16823629	1.00[AMR][1000 genomes]
rs16823639	1.00[AMR][1000 genomes]
rs55830030	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59638652	1.00[EUR][1000 genomes]
rs60032580	1.00[AMR][1000 genomes]
rs6430049	1.00[EUR][1000 genomes]
rs6709167	1.00[EUR][1000 genomes]
rs6736292	1.00[EUR][1000 genomes]
rs6747751	0.86[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs72992109	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72992116	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72992120	1.00[AMR][1000 genomes]
rs73006242	1.00[EUR][1000 genomes]
rs73006264	1.00[EUR][1000 genomes]
rs73006270	1.00[EUR][1000 genomes]
rs73006274	1.00[EUR][1000 genomes]
rs73006276	1.00[EUR][1000 genomes]
rs73006279	1.00[EUR][1000 genomes]
rs73964986	0.86[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs7587100	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532755	chr2:144631279-145270874	Enhancers Weak transcription Active TSS Bivalent/Poised TSS Genic enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	nsv1006344	chr2:144657716-145334899	Bivalent Enhancer Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
3	nsv535951	chr2:144657716-145334899	Enhancers Strong transcription Genic enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
4	nsv1067624	chr2:144657717-145425705	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
5	nsv531413	chr2:144657717-145425705	Weak transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
6	nsv532756	chr2:144746353-145315596	Flanking Active TSS Weak transcription Enhancers Strong transcription Genic enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
7	nsv1008032	chr2:144840552-145234229	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
8	nsv997624	chr2:144906679-145294503	Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Genic enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
9	nsv535952	chr2:144906679-145294503	Bivalent Enhancer Enhancers Active TSS Flanking Active TSS Strong transcription Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
10	nsv532757	chr2:144922143-145263446	Strong transcription Weak transcription Flanking Active TSS Genic enhancers Enhancers Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
11	nsv916172	chr2:144970681-145425713	Bivalent/Poised TSS Weak transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
12	nsv948474	chr2:145035890-145436665	Enhancers Strong transcription Weak transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
13	nsv1004937	chr2:145079535-145159021	Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:71 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:145070800-145088000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
2	chr2:145075000-145088400	Weak transcription	Primary neutrophils fromperipheralblood	blood
3	chr2:145078400-145084400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr2:145078400-145088600	Weak transcription	Ovary	ovary
5	chr2:145078400-145088600	Weak transcription	Right Ventricle	heart
6	chr2:145078400-145089200	Weak transcription	Spleen	Spleen
7	chr2:145078600-145085400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr2:145078600-145088400	Weak transcription	HSMM	muscle
9	chr2:145078800-145085200	Weak transcription	Psoas Muscle	Psoas
10	chr2:145078800-145088600	Weak transcription	HSMMtube	muscle
11	chr2:145079000-145088600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
12	chr2:145080400-145088200	Weak transcription	Brain Germinal Matrix	brain
13	chr2:145080800-145089000	Weak transcription	Lung	lung
14	chr2:145081000-145087400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
15	chr2:145081000-145088600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
16	chr2:145081200-145087400	Weak transcription	Fetal Lung	lung
17	chr2:145081600-145087800	Weak transcription	NHDF-Ad	bronchial
18	chr2:145081800-145087000	Weak transcription	Primary T helper cells fromperipheralblood	blood
19	chr2:145082200-145083800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr2:145082200-145088800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
21	chr2:145082400-145085000	Weak transcription	K562	blood
22	chr2:145082400-145086000	Weak transcription	Small Intestine	intestine
23	chr2:145082400-145088600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
24	chr2:145082600-145083800	Weak transcription	Primary T cells fromperipheralblood	blood
25	chr2:145082600-145088600	Weak transcription	Fetal Intestine Large	intestine
26	chr2:145082800-145084400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
27	chr2:145082800-145084400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
28	chr2:145082800-145084600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
29	chr2:145082800-145084600	Weak transcription	Fetal Muscle Leg	muscle
30	chr2:145082800-145084800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
31	chr2:145082800-145085000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
32	chr2:145082800-145088400	Weak transcription	HUES6 Cell Line	embryonic stem cell
33	chr2:145082800-145088400	Weak transcription	HUES64 Cell Line	embryonic stem cell
34	chr2:145082800-145088400	Weak transcription	Primary B cells from cord blood	blood
35	chr2:145082800-145088400	Weak transcription	Rectal Mucosa Donor 29	rectum
36	chr2:145082800-145088400	Weak transcription	HMEC	breast
37	chr2:145082800-145088600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
38	chr2:145083000-145084600	Weak transcription	Skeletal Muscle Female	skeletal muscle
39	chr2:145083000-145087400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
40	chr2:145083000-145087600	Weak transcription	Brain Hippocampus Middle	brain
41	chr2:145083000-145087800	Weak transcription	Muscle Satellite Cultured Cells	--
42	chr2:145083000-145088200	Weak transcription	NHEK	skin
43	chr2:145083000-145088400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
44	chr2:145083000-145088400	Weak transcription	Fetal Intestine Small	intestine
45	chr2:145083000-145088400	Weak transcription	Fetal Stomach	stomach
46	chr2:145083000-145088400	Weak transcription	Right Atrium	heart
47	chr2:145083000-145088600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
48	chr2:145083000-145089000	Weak transcription	Sigmoid Colon	Sigmoid Colon
49	chr2:145083200-145084200	Weak transcription	A549	lung
50	chr2:145083200-145087400	Weak transcription	Fetal Kidney	kidney

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